SYANAC

SYnthetic biological Automaton for Noughts and Crosses

S. Ayukawa, A. Kobayashi, Y. Nakashima, H. Takagi, S. Hamada, M. Uchiyama, K. Yugi, S. Murata, Y. Sakakibara, M. Hagiya, M. Yamamura, Daisuke Kiga

Research output: Contribution to journalArticle

2 Citations (Scopus)

Abstract

The project of Tokyo Alliance was to construct a bacterial system which plays 'noughts and crosses' against a human player. We named it SYANAC, SYnthetic biological Automaton for Noughts And Crosses. An unbeaten strategy of the game could be written in a simple state transition diagram with at most three turns. Based on the diagram, we tried to construct a set of in vivo logic gates which determines a move of SYANAC against that of the human player. For the logic gates, inputs are chemicals that regulate protein bindings to corresponding DNA sequences in reporter genes. In order to implement the logic gates efficiently, we standardised the protein-binding sequences and designed a systematic construction method. With the method, it is practical to combine some of these standardised sequences together to construct transcriptional regulatory regions. Since these protein-binding sites are short, we can use chemically synthesised DNA as a part. A regulatable gene was constructed by insertion of a -35/-10 promoter part and LacI-binding-site parts into a promoterless reporter plasmid which can also accommodate canonical Biobricks. This new method, thus, will allow us to construct a set of logic gates by combining standardised protein-binding parts and Biobricks and to realise the game.

Original languageEnglish
Pages (from-to)64-67
Number of pages4
JournalIET Synthetic Biology
Volume1
Issue number1-2
DOIs
Publication statusPublished - 2007
Externally publishedYes

Fingerprint

Logic gates
Protein Binding
Binding sites
Genes
Binding Sites
Tokyo
Nucleic Acid Regulatory Sequences
DNA sequences
Reporter Genes
Plasmids
DNA

ASJC Scopus subject areas

  • Molecular Biology
  • Biotechnology
  • Cell Biology
  • Bioengineering

Cite this

Ayukawa, S., Kobayashi, A., Nakashima, Y., Takagi, H., Hamada, S., Uchiyama, M., ... Kiga, D. (2007). SYANAC: SYnthetic biological Automaton for Noughts and Crosses. IET Synthetic Biology, 1(1-2), 64-67. https://doi.org/10.1049/iet-stb:20070003

SYANAC : SYnthetic biological Automaton for Noughts and Crosses. / Ayukawa, S.; Kobayashi, A.; Nakashima, Y.; Takagi, H.; Hamada, S.; Uchiyama, M.; Yugi, K.; Murata, S.; Sakakibara, Y.; Hagiya, M.; Yamamura, M.; Kiga, Daisuke.

In: IET Synthetic Biology, Vol. 1, No. 1-2, 2007, p. 64-67.

Research output: Contribution to journalArticle

Ayukawa, S, Kobayashi, A, Nakashima, Y, Takagi, H, Hamada, S, Uchiyama, M, Yugi, K, Murata, S, Sakakibara, Y, Hagiya, M, Yamamura, M & Kiga, D 2007, 'SYANAC: SYnthetic biological Automaton for Noughts and Crosses', IET Synthetic Biology, vol. 1, no. 1-2, pp. 64-67. https://doi.org/10.1049/iet-stb:20070003
Ayukawa S, Kobayashi A, Nakashima Y, Takagi H, Hamada S, Uchiyama M et al. SYANAC: SYnthetic biological Automaton for Noughts and Crosses. IET Synthetic Biology. 2007;1(1-2):64-67. https://doi.org/10.1049/iet-stb:20070003
Ayukawa, S. ; Kobayashi, A. ; Nakashima, Y. ; Takagi, H. ; Hamada, S. ; Uchiyama, M. ; Yugi, K. ; Murata, S. ; Sakakibara, Y. ; Hagiya, M. ; Yamamura, M. ; Kiga, Daisuke. / SYANAC : SYnthetic biological Automaton for Noughts and Crosses. In: IET Synthetic Biology. 2007 ; Vol. 1, No. 1-2. pp. 64-67.
@article{ddecc08fc7bf4c88a57331ce42796a08,
title = "SYANAC: SYnthetic biological Automaton for Noughts and Crosses",
abstract = "The project of Tokyo Alliance was to construct a bacterial system which plays 'noughts and crosses' against a human player. We named it SYANAC, SYnthetic biological Automaton for Noughts And Crosses. An unbeaten strategy of the game could be written in a simple state transition diagram with at most three turns. Based on the diagram, we tried to construct a set of in vivo logic gates which determines a move of SYANAC against that of the human player. For the logic gates, inputs are chemicals that regulate protein bindings to corresponding DNA sequences in reporter genes. In order to implement the logic gates efficiently, we standardised the protein-binding sequences and designed a systematic construction method. With the method, it is practical to combine some of these standardised sequences together to construct transcriptional regulatory regions. Since these protein-binding sites are short, we can use chemically synthesised DNA as a part. A regulatable gene was constructed by insertion of a -35/-10 promoter part and LacI-binding-site parts into a promoterless reporter plasmid which can also accommodate canonical Biobricks. This new method, thus, will allow us to construct a set of logic gates by combining standardised protein-binding parts and Biobricks and to realise the game.",
author = "S. Ayukawa and A. Kobayashi and Y. Nakashima and H. Takagi and S. Hamada and M. Uchiyama and K. Yugi and S. Murata and Y. Sakakibara and M. Hagiya and M. Yamamura and Daisuke Kiga",
year = "2007",
doi = "10.1049/iet-stb:20070003",
language = "English",
volume = "1",
pages = "64--67",
journal = "IET Synthetic Biology",
issn = "1752-1394",
publisher = "Institution of Engineering and Technology",
number = "1-2",

}

TY - JOUR

T1 - SYANAC

T2 - SYnthetic biological Automaton for Noughts and Crosses

AU - Ayukawa, S.

AU - Kobayashi, A.

AU - Nakashima, Y.

AU - Takagi, H.

AU - Hamada, S.

AU - Uchiyama, M.

AU - Yugi, K.

AU - Murata, S.

AU - Sakakibara, Y.

AU - Hagiya, M.

AU - Yamamura, M.

AU - Kiga, Daisuke

PY - 2007

Y1 - 2007

N2 - The project of Tokyo Alliance was to construct a bacterial system which plays 'noughts and crosses' against a human player. We named it SYANAC, SYnthetic biological Automaton for Noughts And Crosses. An unbeaten strategy of the game could be written in a simple state transition diagram with at most three turns. Based on the diagram, we tried to construct a set of in vivo logic gates which determines a move of SYANAC against that of the human player. For the logic gates, inputs are chemicals that regulate protein bindings to corresponding DNA sequences in reporter genes. In order to implement the logic gates efficiently, we standardised the protein-binding sequences and designed a systematic construction method. With the method, it is practical to combine some of these standardised sequences together to construct transcriptional regulatory regions. Since these protein-binding sites are short, we can use chemically synthesised DNA as a part. A regulatable gene was constructed by insertion of a -35/-10 promoter part and LacI-binding-site parts into a promoterless reporter plasmid which can also accommodate canonical Biobricks. This new method, thus, will allow us to construct a set of logic gates by combining standardised protein-binding parts and Biobricks and to realise the game.

AB - The project of Tokyo Alliance was to construct a bacterial system which plays 'noughts and crosses' against a human player. We named it SYANAC, SYnthetic biological Automaton for Noughts And Crosses. An unbeaten strategy of the game could be written in a simple state transition diagram with at most three turns. Based on the diagram, we tried to construct a set of in vivo logic gates which determines a move of SYANAC against that of the human player. For the logic gates, inputs are chemicals that regulate protein bindings to corresponding DNA sequences in reporter genes. In order to implement the logic gates efficiently, we standardised the protein-binding sequences and designed a systematic construction method. With the method, it is practical to combine some of these standardised sequences together to construct transcriptional regulatory regions. Since these protein-binding sites are short, we can use chemically synthesised DNA as a part. A regulatable gene was constructed by insertion of a -35/-10 promoter part and LacI-binding-site parts into a promoterless reporter plasmid which can also accommodate canonical Biobricks. This new method, thus, will allow us to construct a set of logic gates by combining standardised protein-binding parts and Biobricks and to realise the game.

UR - http://www.scopus.com/inward/record.url?scp=34547796368&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=34547796368&partnerID=8YFLogxK

U2 - 10.1049/iet-stb:20070003

DO - 10.1049/iet-stb:20070003

M3 - Article

VL - 1

SP - 64

EP - 67

JO - IET Synthetic Biology

JF - IET Synthetic Biology

SN - 1752-1394

IS - 1-2

ER -